Potential dual expansion of domesticated donkeys revealed by worldwide analysis on mitochondrial sequences

Xi-Yao Ma; Tiao Ning; Adeniyi C. Adeola; Jie Li; Ali Esmailizadeh; Jacqueline K. Lichoti; Bernard R. Agwanda; Jainagul Isakova; Almaz A. Aldashev; Shi-Fang Wu; He-Qun Liu; Najmudinov Tojiddin Abdulloevich; Manilova Elena Afanasevna; Khudoidodov Behruz Ibrohimovich; Rahamon Akinyele Moshood Adedokun; Sunday Charles Olaogun; Oscar J. Sanke; Godwin F. Mangbon; Xi Chen; Wei-Kang Yang; Zhe Wang; Min-Sheng Peng; Sheila C. Ommeh; Yan Li; Ya-Ping Zhang

doi:10.24272/j.issn.2095-8137.2020.007

Volume 41 Issue 1

Jan. 2020

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Xi-Yao Ma, Tiao Ning, Adeniyi C. Adeola, Jie Li, Ali Esmailizadeh, Jacqueline K. Lichoti, Bernard R. Agwanda, Jainagul Isakova, Almaz A. Aldashev, Shi-Fang Wu, He-Qun Liu, Najmudinov Tojiddin Abdulloevich, Manilova Elena Afanasevna, Khudoidodov Behruz Ibrohimovich, Rahamon Akinyele Moshood Adedokun, Sunday Charles Olaogun, Oscar J. Sanke, Godwin F. Mangbon, Xi Chen, Wei-Kang Yang, Zhe Wang, Min-Sheng Peng, Sheila C. Ommeh, Yan Li, Ya-Ping Zhang. Potential dual expansion of domesticated donkeys revealed by worldwide analysis on mitochondrial sequences. Zoological Research, 2020, 41(1): 51-60. doi: 10.24272/j.issn.2095-8137.2020.007

Citation:

Xi-Yao Ma, Tiao Ning, Adeniyi C. Adeola, Jie Li, Ali Esmailizadeh, Jacqueline K. Lichoti, Bernard R. Agwanda, Jainagul Isakova, Almaz A. Aldashev, Shi-Fang Wu, He-Qun Liu, Najmudinov Tojiddin Abdulloevich, Manilova Elena Afanasevna, Khudoidodov Behruz Ibrohimovich, Rahamon Akinyele Moshood Adedokun, Sunday Charles Olaogun, Oscar J. Sanke, Godwin F. Mangbon, Xi Chen, Wei-Kang Yang, Zhe Wang, Min-Sheng Peng, Sheila C. Ommeh, Yan Li, Ya-Ping Zhang. Potential dual expansion of domesticated donkeys revealed by worldwide analysis on mitochondrial sequences. Zoological Research, 2020, 41(1): 51-60. doi: 10.24272/j.issn.2095-8137.2020.007

Citation:

Xi-Yao Ma, Tiao Ning, Adeniyi C. Adeola, Jie Li, Ali Esmailizadeh, Jacqueline K. Lichoti, Bernard R. Agwanda, Jainagul Isakova, Almaz A. Aldashev, Shi-Fang Wu, He-Qun Liu, Najmudinov Tojiddin Abdulloevich, Manilova Elena Afanasevna, Khudoidodov Behruz Ibrohimovich, Rahamon Akinyele Moshood Adedokun, Sunday Charles Olaogun, Oscar J. Sanke, Godwin F. Mangbon, Xi Chen, Wei-Kang Yang, Zhe Wang, Min-Sheng Peng, Sheila C. Ommeh, Yan Li, Ya-Ping Zhang. Potential dual expansion of domesticated donkeys revealed by worldwide analysis on mitochondrial sequences. Zoological Research, 2020, 41(1): 51-60. doi: 10.24272/j.issn.2095-8137.2020.007

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Potential dual expansion of domesticated donkeys revealed by worldwide analysis on mitochondrial sequences

doi: 10.24272/j.issn.2095-8137.2020.007

1.
State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, School of Life Sciences, Yunnan University, Kunming, Yunnan 650091, China
2.
Agriculture College, Kunming University, Kunming, Yunnan 650214, China
3.
Engineering Research Center for Urban Modern Agriculture of Higher Education in Yunnan Province, Kunming University, Kunming, Yunnan 650214, China
4.
State Key Laboratory of Genetic Resources and Evolution, Yunnan Laboratory of Molecular Biology of Domestic Animals, Germplasm Bank of Wild Species, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
5.
Sino-Africa Joint Research Center, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
6.
Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman PB 76169-133, Iran
7.
State Department of Livestock, Ministry of Agriculture Livestock and Fisheries, Nairobi 00100, Kenya
8.
Department of Zoology, National Museums of Kenya, Nairobi 00100, Kenya
9.
Institute of Molecular Biology and Medicine, Bishkek 720040, Kyrgyzstan
10.
E.N. Pavlovsky Institute of Zoology and Parasitology, Academy of Sciences of Republic of Tajikistan, Dushanbe 734025, Tajikistan
11.
Department of Veterinary Medicine, University of Ibadan, Ibadan 200284, Nigeria
12.
Taraba State Ministry of Agriculture and Natural Resources, Jalingo 660221, Nigeria
13.
Division of Veterinary Office, Serti 663101, Nigeria
14.
Research Center for Ecology and Environment of Central Asia, Chinese Academy of Sciences, Urumqi, Xinjiang 830011, China
15.
Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, Xinjiang 830011, China
16.
Department of Physiology, Hebei Medical University, Shijiazhuang, Hebei 050017, China
17.
Hebei Key Laboratory of Animal Science, Hebei Medical University, Shijiazhuang, Hebei 050017, China
18.
Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming, Yunnan 650204, China
19.
Animal Biotechnology Group, Institute of Biotechnology Research, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya
20.
Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, Yunnan 650223, China

#Authors contributed equally to this work

Funds: This work was supported by the Strategic Priority Research Program of the Chinese Academy of Sciences (XDA2004010302), Second Tibetan Plateau Scientific Expedition and Research (STEP) Program (2019QZKK0501), National Natural Science Foundation of China (31860305), Sino-Africa Joint Research Center, Chinese Academy of Sciences (SAJC201611), and Research Center for Ecology and Environment of Central Asia, Chinese Academy of Sciences. Y.L. was supported by the Young Academic and Technical Leader Raising Foundation of Yunnan Province. Samples used in this study were provided by the Animal Branch of the Germplasm Bank of Wild Species, Chinese Academy of Sciences (Large Research Infrastructure Funding)

More Information

Corresponding author: E-mail: sommeh@jkuat.ac.ke; liyan0910@ynu.edu.cn; zhangyp@mail.kiz.ac.cn
Received Date: 2019-07-03
Published Online: 2019-10-29
Publish Date: 2020-01-18

Abstract

Abstract

Molecular studies on donkey mitochondrial sequences have clearly defined two distinct maternal lineages involved in domestication. However, domestication histories of these two lineages remain enigmatic. We therefore compared several population characteristics between these two lineages based on global sampling, which included 171 sequences obtained in this study (including Middle Asian, East Asian, and African samples) plus 536 published sequences (including European, Asian, and African samples). The two lineages were clearly separated from each other based on whole mitochondrial genomes and partial non-coding displacement loop (D-loop) sequences, respectively. The Clade I lineage experienced an increase in population size more than 8 000 years ago and shows a complex haplotype network. In contrast, the population size of the Clade II lineage has remained relatively constant, with a simpler haplotype network. Although the distribution of the two lineages was almost equal across the Eurasian mainland, they still presented discernible but complex geographic bias in most parts of Africa, which are known as their domestication sites. Donkeys from sub-Saharan Africa tended to descend from the Clade I lineage, whereas the Clade II lineage was dominant along the East and North coasts of Africa. Furthermore, the migration routes inferred from diversity decay suggested different expansion across China between the two lineages. Altogether, these differences indicated non-simultaneous domestication of the two lineages, which was possibly influenced by the response of pastoralists to the desertification of the Sahara and by the social expansion and trade of ancient humans in Northeast Africa, respectively.
- Donkey lineage,
- Domestication history,
- Population,
- Expansion

#Authors contributed equally to this work

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References(43)

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